Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_05262

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 462

Length: 771
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28


Found at i:453 original size:54 final size:54

Alignment explanation


    Indices: 380--489  Score: 125
    Period size: 54  Copynumber: 2.0  Consensus size: 54

        370 AATATGGAGG

                                *                         *         
        380 TGAACACTGAATTCCTACCATATCC-AACAGAAGA-TCTTACAAGTGCTAAAGAGA
          1 TGAACACTGAATTCCTACCAAATCCTAAC-GAAGATTC-TACAAGTCCTAAAGAGA

                  *      **            *             *            
        434 TGAACATTGAATTGTTACCAAATCCTATCGAAGATTCTACAGGTCCTAAAGAGA
          1 TGAACACTGAATTCCTACCAAATCCTAACGAAGATTCTACAAGTCCTAAAGAGA

              
        488 TG
          1 TG

        490 GAGGAGTGGA


Statistics
Matches: 47,  Mismatches: 7, Indels: 4
        0.81            0.12        0.07

Matches are distributed among these distances:
  54   43  0.91
  55    4  0.09

ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25


Consensus pattern (54 bp):   
TGAACACTGAATTCCTACCAAATCCTAACGAAGATTCTACAAGTCCTAAAGAGA
Done.